Antigen

Antigen Class

TFs and others

Antigen

ESR1

Cell type

Cell type Class

Breast

Cell type

Breast cancer cells

NA

NA

Sample

source_name

Gar15-13 Decitabine tumour

tissue

Breast cancer PDX model Gar15-13

treatment

Decitabine

replicate

9

chip antibody

ER (Millipore SC-543X)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Samples snap-frozen in Optimal Cutting Temperature compound (Tissue-Tek) were used for ER and FOXA1 ChIP-seq experiments. Using a cryostat (Leica, #CM3050-S), 15x 30 µm sections were cut from each tumour at -20 ̊C and these samples were subjected to double fixation with DSG and formaldehyde as previously described (Singh et al., 2019). Library preparation for ChIP-Seq was performed using the QIAseq Ultralow Input Library Kit (Qiagen, #180495).

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

30304994

Reads aligned (%)

96.8

Duplicates removed (%)

5.8

Number of peaks

8462 (qval < 1E-05)

hg19

Number of total reads

30304994

Reads aligned (%)

96.2

Duplicates removed (%)

6.8

Number of peaks

8364 (qval < 1E-05)